We introduce the data model BM, which specifies kernels of motifs by means of Boolean matrices. Different from position frequency matrices these only specify which bases can appea...
Background: Many statistical algorithms combine microarray expression data and genome sequence data to identify transcription factor binding motifs in the low eukaryotic genomes. ...
We study the problem of structured motif search in DNA sequences. This is a fundamental task in bioinformatics which contributes to better understanding of genome characteristics a...
Background: Alignment of RNA secondary structures is important in studying functional RNA motifs. In recent years, much progress has been made in RNA motif finding and structure a...
Jianghui Liu, Jason Tsong-Li Wang, Jun Hu, Bin Tia...
Background: Cis-acting transcriptional regulatory elements in mammalian genomes typically contain specific combinations of binding sites for various transcription factors. Althoug...
Xochitl C. Morgan, Shulin Ni, Daniel P. Miranker, ...